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BioLiP
Download all results in tab-seperated text for 120 receptor-ligand interactions, whose format is explained at readme.txt.
  • Hover over PDB to view the title of the structure. Click PDB to view the structure at the RCSB PDB database. Resolution -1.00 means the resolution is unavailable, e.g., for NMR structures.
  • Click Site # to view the binding site structure. Hover over Site # to view the binding residues.
  • Hover over Ligand to view the full ligand name. Click Ligand to view the 2D diagram and other detail information of the ligand.
  • Hover over EC number to view the full name of enzymatic activity.
  • Hover over GO terms to view all GO terms.
  • Hover over UniProt to view the protein name.

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    # PDB
    (Resolution Å)     		Site # Ligand EC number GO terms UniProt PubMed Binding
    affinity
    1 1bu5:A (1.83) BS01 RBF ? GO:0009055 ... P00323 9874201
    2 1bu5:B (1.83) BS01 RBF ? GO:0009055 ... P00323 9874201
    3 1hze:A (-1.00) BS01 RBF 2.5.1.9 N/A P0AFU8 11399071
    4 1hze:B (-1.00) BS01 RBF 2.5.1.9 N/A P0AFU8 11399071
    5 1i18:A (-1.00) BS01 RBF 2.5.1.9 N/A P0AFU8 11399071
    6 1i18:B (-1.00) BS01 RBF 2.5.1.9 N/A P0AFU8 11399071
    7 1kyv:A (2.4) BS01 RBF 2.5.1.78 GO:0000906 ... Q9UUB1 12083520 MOAD: Kd=1.2uM
    8 1kyv:A (2.4) BS02 RBF 2.5.1.78 GO:0000906 ... Q9UUB1 12083520 MOAD: Kd=1.2uM
    9 1kyv:B (2.4) BS01 RBF 2.5.1.78 GO:0000906 ... Q9UUB1 12083520 MOAD: Kd=1.2uM
    10 1kyv:B (2.4) BS02 RBF 2.5.1.78 GO:0000906 ... Q9UUB1 12083520 MOAD: Kd=1.2uM
    11 1kyv:C (2.4) BS01 RBF 2.5.1.78 GO:0000906 ... Q9UUB1 12083520 MOAD: Kd=1.2uM
    12 1kyv:C (2.4) BS02 RBF 2.5.1.78 GO:0000906 ... Q9UUB1 12083520 MOAD: Kd=1.2uM
    13 1kyv:D (2.4) BS01 RBF 2.5.1.78 GO:0000906 ... Q9UUB1 12083520 MOAD: Kd=1.2uM
    14 1kyv:D (2.4) BS02 RBF 2.5.1.78 GO:0000906 ... Q9UUB1 12083520 MOAD: Kd=1.2uM
    15 1kyv:E (2.4) BS01 RBF 2.5.1.78 GO:0000906 ... Q9UUB1 12083520 MOAD: Kd=1.2uM
    16 1kyv:E (2.4) BS02 RBF 2.5.1.78 GO:0000906 ... Q9UUB1 12083520 MOAD: Kd=1.2uM
    17 1l5r:A (2.1) BS04 RBF 2.4.1.1 GO:0000166 ... P06737 12204691 MOAD: Kd=17uM
    PDBbind: -logKd/Ki=4.77, Kd=17uM
    18 1nb9:A (1.7) BS02 RBF 2.7.1.26 GO:0005515 ... Q969G6 12623014
    19 1pkv:A (2.6) BS01 RBF 2.5.1.9 N/A P0AFU8 12927541
    20 1pkv:A (2.6) BS02 RBF 2.5.1.9 N/A P0AFU8 12927541
    21 1pkv:B (2.6) BS01 RBF 2.5.1.9 N/A P0AFU8 12927541
    22 1pkv:B (2.6) BS02 RBF 2.5.1.9 N/A P0AFU8 12927541
    23 1t6z:A (2.4) BS01 RBF 2.7.1.26
    2.7.7.2    		 GO:0003919 ... Q9WZW1 N/A
    24 1t6z:B (2.4) BS01 RBF 2.7.1.26
    2.7.7.2    		 GO:0003919 ... Q9WZW1 N/A
    25 2a58:A (2.8) BS01 RBF 2.5.1.78 GO:0000906 ... Q9UUB1 15265040 PDBbind: -logKd/Ki=4.92, Kd=12.0uM
    26 2a58:B (2.8) BS01 RBF 2.5.1.78 GO:0000906 ... Q9UUB1 15265040
    27 2a58:C (2.8) BS01 RBF 2.5.1.78 GO:0000906 ... Q9UUB1 15265040
    28 2a58:D (2.8) BS01 RBF 2.5.1.78 GO:0000906 ... Q9UUB1 15265040
    29 2a58:E (2.8) BS01 RBF 2.5.1.78 GO:0000906 ... Q9UUB1 15265040 PDBbind: -logKd/Ki=4.92, Kd=12.0uM
    30 2cc8:A (1.9) BS01 RBF ? GO:0005737 ... B0R5M0 16460756 MOAD: Kd=35.76nM
    31 2ccb:A (1.65) BS01 RBF ? GO:0005737 ... B0R5M0 16460756 MOAD: Kd=35.76nM
    PDBbind: -logKd/Ki=7.45, Kd=35.76nM
    32 2fl5:A (3.0) BS01 RBF ? N/A Q5FWF9 16537445
    33 2fl5:B (3.0) BS01 RBF N/A N/A N/A 16537445
    34 2fl5:D (3.0) BS01 RBF N/A N/A N/A 16537445
    35 2fl5:F (3.0) BS01 RBF N/A N/A N/A 16537445
    36 2fl5:H (3.0) BS01 RBF N/A N/A N/A 16537445 PDBbind: -logKd/Ki=8.74, Kd=1.8nM
    37 2fl5:L (3.0) BS01 RBF ? N/A Q5FWF9 16537445 PDBbind: -logKd/Ki=8.74, Kd=1.8nM
    38 2vx9:A (1.65) BS01 RBF ? GO:0005737 ... B0R5M0 19224924 PDBbind: -logKd/Ki=7.44, Kd=36nM
    39 2vxa:A (2.6) BS01 RBF ? GO:0000166 ... A1WUH0 19224924 PDBbind: -logKd/Ki=5.60, Kd=2.5uM
    40 2vxa:A (2.6) BS02 RBF ? GO:0000166 ... A1WUH0 19224924 PDBbind: -logKd/Ki=5.60, Kd=2.5uM
    41 2vxa:B (2.6) BS01 RBF ? GO:0000166 ... A1WUH0 19224924
    42 2vxa:C (2.6) BS01 RBF ? GO:0000166 ... A1WUH0 19224924 PDBbind: -logKd/Ki=5.60, Kd=2.5uM
    43 2vxa:C (2.6) BS02 RBF ? GO:0000166 ... A1WUH0 19224924 PDBbind: -logKd/Ki=5.60, Kd=2.5uM
    44 2vxa:D (2.6) BS01 RBF ? GO:0000166 ... A1WUH0 19224924
    45 2vxa:D (2.6) BS02 RBF ? GO:0000166 ... A1WUH0 19224924
    46 2vxa:E (2.6) BS01 RBF ? GO:0000166 ... A1WUH0 19224924 PDBbind: -logKd/Ki=5.60, Kd=2.5uM
    47 2vxa:E (2.6) BS02 RBF ? GO:0000166 ... A1WUH0 19224924 PDBbind: -logKd/Ki=5.60, Kd=2.5uM
    48 2vxa:F (2.6) BS01 RBF ? GO:0000166 ... A1WUH0 19224924 PDBbind: -logKd/Ki=5.60, Kd=2.5uM
    49 2vxa:F (2.6) BS02 RBF ? GO:0000166 ... A1WUH0 19224924 PDBbind: -logKd/Ki=5.60, Kd=2.5uM
    50 2vxa:G (2.6) BS01 RBF ? GO:0000166 ... A1WUH0 19224924
    51 2vxa:G (2.6) BS02 RBF ? GO:0000166 ... A1WUH0 19224924
    52 2vxa:H (2.6) BS01 RBF ? GO:0000166 ... A1WUH0 19224924
    53 2vxa:H (2.6) BS02 RBF ? GO:0000166 ... A1WUH0 19224924
    54 2vxa:I (2.6) BS01 RBF ? GO:0000166 ... A1WUH0 19224924
    55 2vxa:I (2.6) BS02 RBF ? GO:0000166 ... A1WUH0 19224924
    56 2vxa:J (2.6) BS01 RBF ? GO:0000166 ... A1WUH0 19224924
    57 2vxa:J (2.6) BS02 RBF ? GO:0000166 ... A1WUH0 19224924
    58 2vxa:K (2.6) BS01 RBF ? GO:0000166 ... A1WUH0 19224924
    59 2vxa:K (2.6) BS02 RBF ? GO:0000166 ... A1WUH0 19224924
    60 2vxa:L (2.6) BS01 RBF ? GO:0000166 ... A1WUH0 19224924
    61 3a35:A (1.421) BS01 RBF 2.5.1.9 GO:0000166 ... C4TPG1 19854891
    62 3a35:B (1.421) BS01 RBF 2.5.1.9 GO:0000166 ... C4TPG1 19854891
    63 3a3b:A (2.0) BS01 RBF 2.5.1.9 GO:0000166 ... C4TPG1 19854891
    64 3ddy:A (2.5) BS01 RBF ? GO:0004746 ... Q06877 18602927
    65 3p5n:A (3.6) BS01 RBF ? GO:0005886 ... E5QVT2 20972419
    66 3p5n:B (3.6) BS01 RBF ? GO:0005886 ... E5QVT2 20972419
    67 4d1y:A (2.6) BS01 RBF ? GO:0000166 ... Q8A8A4 25263158 PDBbind: -logKd/Ki=7.13, Kd=74nM
    68 4e0f:A (2.85) BS01 RBF N/A N/A N/A 24816110
    69 4e0f:B (2.85) BS01 RBF N/A N/A N/A 24816110
    70 4iil:A (1.3) BS01 RBF ? GO:0005886 ... Q56328 23404400
    71 4kuk:A (1.5) BS01 RBF ? GO:0000166 ... A8LP63 25887755
    72 4kuo:A (2.0) BS01 RBF ? GO:0000166 ... A8LP63 25887755
    73 4r38:A (1.6) BS01 RBF 2.7.13.3 N/A Q2NB77 25468971
    74 4r38:B (1.6) BS01 RBF 2.7.13.3 N/A Q2NB77 25468971
    75 4r38:C (1.6) BS01 RBF 2.7.13.3 N/A Q2NB77 25468971
    76 4r38:D (1.6) BS01 RBF 2.7.13.3 N/A Q2NB77 25468971
    77 4r3a:A (2.92) BS02 RBF 2.7.13.3 GO:0004673 ... Q2NB77 25468971
    78 4r3a:B (2.92) BS02 RBF 2.7.13.3 GO:0004673 ... Q2NB77 25468971
    79 5kbw:A (2.6093) BS01 RBF ? GO:0005886 ... Q9X1G6 27312125
    80 5kbw:B (2.6093) BS01 RBF ? GO:0005886 ... Q9X1G6 27312125
    81 5kc0:A (3.2001) BS01 RBF ? GO:0005886 ... Q9X1G6 27312125
    82 5kc4:A (3.4) BS01 RBF ? GO:0005886 ... Q9X1G6 27312125
    83 5kc4:E (3.4) BS01 RBF ? GO:0005886 ... Q9X1G6 27312125
    84 5umw:A (2.27) BS01 RBF ? GO:0004462 ... A0A125SA26 29937405 PDBbind: -logKd/Ki=4.23, Kd=59.5uM
    85 5umw:B (2.27) BS01 RBF ? GO:0004462 ... A0A125SA26 29937405 MOAD: Kd=59500nM
    86 5umw:E (2.27) BS01 RBF ? GO:0004462 ... A0A125SA26 29937405
    87 5umx:A (1.59) BS01 RBF ? GO:0046872 ... A0A125SA29 29937405 PDBbind: -logKd/Ki=5.96, Kd=1.1uM
    88 5umx:B (1.59) BS01 RBF ? GO:0046872 ... A0A125SA29 29937405 MOAD: Kd=1100nM
    PDBbind: -logKd/Ki=5.96, Kd=1.1uM
    89 5umx:B (1.59) BS02 RBF ? GO:0046872 ... A0A125SA29 29937405 MOAD: Kd=1100nM
    PDBbind: -logKd/Ki=5.96, Kd=1.1uM
    90 5w4z:A (1.75) BS02 RBF ? GO:0000166 ... A0A3B6UEK8 N/A
    91 5w4z:B (1.75) BS02 RBF ? GO:0000166 ... A0A3B6UEK8 N/A
    92 6n7f:A (1.9) BS02 RBF 1.8.1.7 GO:0000166 ... Q9A0E2 N/A
    93 7lik:A (2.91) BS01 RBF 3.4.-.- GO:0006508 ... Q9WZP2 35119930
    94 7lis:A (2.96) BS01 RBF 3.4.-.- GO:0006508 ... Q9WZP2 35119930
    95 7lit:A (2.53) BS01 RBF 3.4.-.- GO:0006508 ... Q9WZP2 35119930
    96 7pd9:A (1.39) BS04 RBF 3.1.3.35
    3.1.3.5
    3.1.3.89
    3.1.3.91
    3.1.3.99    		 GO:0000166 ... P21589 34403084
    97 7qf2:AAA (1.07) BS01 RBF N/A N/A N/A 35041199
    98 7qf4:AAA (1.17) BS01 RBF N/A N/A N/A 35041199
    99 7xk3:B (3.1) BS02 RBF 7.2.1.1 GO:0005886 ... A5F5X0 35882843
    100 7xk4:B (3.1) BS02 RBF 7.2.1.1 GO:0005886 ... A5F5X0 35882843
    101 7xk5:B (3.1) BS02 RBF 7.2.1.1 GO:0005886 ... A5F5X0 35882843
    102 7xk6:B (3.0) BS02 RBF 7.2.1.1 GO:0005886 ... A5F5X0 35882843
    103 7xk7:B (2.9) BS02 RBF 7.2.1.1 GO:0005886 ... A5F5X0 35882843
    104 7zc6:D (4.27) BS02 RBF 7.-.-.- GO:0005886 ... A0A923IYK2 36274063
    105 8a1t:B (3.37) BS02 RBF 7.2.1.1 GO:0005886 ... A5F5X0 37710014
    106 8a1u:B (2.86) BS02 RBF 7.2.1.1 GO:0005886 ... Q9KPS2 37710014
    107 8a1v:B (2.73) BS01 RBF 7.2.1.1 GO:0005886 ... A5F5X0 37710014
    108 8a1w:B (2.56) BS02 RBF 7.2.1.1 GO:0005886 ... A5F5X0 37710014
    109 8a1x:B (3.2) BS02 RBF 7.2.1.1 GO:0005886 ... A5F5X0 37710014
    110 8a1y:B (3.3) BS02 RBF 7.2.1.1 GO:0005886 ... A5F5X0 37710014
    111 8acw:B (3.4) BS02 RBF 7.2.1.1 GO:0005886 ... A5F5X0 37710014
    112 8acy:B (3.5) BS02 RBF 7.2.1.1 GO:0005886 ... A5F5X0 37710014
    113 8ad0:B (3.11) BS02 RBF 7.2.1.1 GO:0005886 ... A5F5X0 N/A
    114 8ahx:D (3.11) BS01 RBF 7.-.-.- GO:0005886 ... C1DMA5 38890433
    115 8evu:B (2.5804) BS02 RBF 7.2.1.1 GO:0005886 ... A5F5X0 N/A
    116 8ew3:B (2.65159) BS02 RBF 7.2.1.1 GO:0005886 ... A5F5X0 N/A
    117 8rb8:D (3.41) BS01 RBF N/A GO:0005886 ... C1DMA5 38890433
    118 8rb9:D (3.19) BS01 RBF N/A GO:0005886 ... C1DMA5 38890433
    119 8rbm:D (3.24) BS01 RBF N/A GO:0005886 ... C1DMA5 38890433
    120 8rbq:D (3.32) BS01 RBF N/A GO:0005886 ... C1DMA5 38890433
    Reference:
  • Chengxin Zhang, Xi Zhang, Peter L Freddolino, and Yang Zhang. BioLiP2: an updated structure database for biologically relevent ligand-protein interactions, Nucleic Acids Research, gkad630 (2023).
  • Jianyi Yang, Ambrish Roy, and Yang Zhang. BioLiP: a semi-manually curated database for biologically relevant ligand-protein interactions, Nucleic Acids Research, 41: D1096-D1103 (2013) (download the PDF file).

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